Manually annotating Enrichment map clusters
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Entering edit mode
6 months ago
minifoog ▴ 10

I am curious on how to go about annotating a cluster on an enrichment map. For example, below is a list of GO BP terms that are clustered together on my enrichment map.

GOBP_AUTOPHAGOSOME_MATURATION

GOBP_VACUOLAR_TRANSPORT

GOBP_VIRAL_BUDDING_VIA_HOST_ESCRT_COMPLEX

GOBP_UBIQUITIN_DEPENDENT_PROTEIN_CATABOLIC_PROCESS_VIA_THE_MULTIVESICULAR_BODY_SORTING_PATHWAY

GOBP_VIRION_ASSEMBLY

GOBP_MULTIVESICULAR_BODY_ORGANIZATION

GOBP_LYSOSOMAL_TRANSPORT

GOBP_VIRAL_BUDDING

GOBP_ENDOSOME_TRANSPORT_VIA_MULTIVESICULAR_BODY_SORTING_PATHWAY

GOBP_MITOPHAGY

GOBP_LATE_ENDOSOME_TO_VACUOLE_TRANSPORT_VIA_MULTIVESICULAR_BODY_SORTING_PATHWAY

GOBP_MACROAUTOPHAGY

GOBP_LATE_ENDOSOME_TO_VACUOLE_TRANSPORT

GOBP_NEGATIVE_REGULATION_OF_MACROAUTOPHAGY

GOBP_ENDOSOME_ORGANIZATION

GOBP_ORGANELLE_DISASSEMBLY

GOBP_ENDOSOME_TO_LYSOSOME_TRANSPORT

GOBP_VACUOLE_ORGANIZATION

GOBP_AUTOPHAGY_OF_MITOCHONDRION

What would be the best way to annotate a cluster? Also, how would you go about on finding a theme amongst biological processes? I am open to any tips and software.

Enrichmentmap Cytoscape GOBPTerms annotating • 292 views
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Entering edit mode
5 months ago
scooter ▴ 540

I'm not sure what kind of annotations you are looking for. EnrichmentMap has a companion app called AutoAnnotate that might do what you want...

-- scooter

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